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1.
AJNR Am J Neuroradiol ; 40(11): 1796-1803, 2019 11.
Article in English | MEDLINE | ID: mdl-31601576

ABSTRACT

BACKGROUND AND PURPOSE: Supratentorial primitive neuroectodermal tumors and pineoblastomas have traditionally been grouped together for treatment purposes. Molecular profiling of these tumors has revealed a number of distinct entities and has led to the term "CNS-primitive neuroectodermal tumors" being removed from the 2016 World Health Organization classification. The purpose of this study was to describe the MR imaging findings of histologically diagnosed primitive neuroectodermal tumors and pineoblastomas and correlate them with molecular diagnoses and outcomes. MATERIALS AND METHODS: Histologically diagnosed primitive neuroectodermal tumors and pineoblastomas were enrolled in this Children's Oncology Group Phase III trial, and molecular classification was retrospectively completed using DNA methylation profiling. MR imaging features were systematically studied and correlated with molecular diagnoses and survival. RESULTS: Of the 85 patients enrolled, 56 met the inclusion criteria, in whom 28 tumors were in pineal and 28 in nonpineal locations. Methylation profiling revealed a variety of diagnoses, including pineoblastomas (n = 27), high-grade gliomas (n = 17), embryonal tumors (n = 7), atypical teratoid/rhabdoid tumors (n = 3), and ependymomas (n = 2). Thus, 39% overall and 71% of nonpineal tumor diagnoses were discrepant with histopathology. Tumor location, size, margins, and edema were predictors of embryonal-versus-nonembryonal tumors. Larger size and ill-defined margins correlated with poor event-free survival, while metastatic disease by MR imaging did not. CONCLUSIONS: In nonpineal locations, only a minority of histologically diagnosed primitive neuroectodermal tumors are embryonal tumors; therefore, high-grade glioma or ependymoma should be high on the radiographic differential. An understanding of molecularly defined tumor entities and their relative frequencies and locations will help the radiologist make more accurate predictions of the tumor types.


Subject(s)
Neuroectodermal Tumors, Primitive/diagnostic imaging , Neuroectodermal Tumors, Primitive/genetics , Pinealoma/diagnostic imaging , Pinealoma/genetics , Supratentorial Neoplasms/diagnostic imaging , Supratentorial Neoplasms/genetics , Adolescent , Brain Neoplasms/diagnostic imaging , Brain Neoplasms/genetics , Brain Neoplasms/pathology , Child , Child, Preschool , Female , Glioma/diagnostic imaging , Glioma/genetics , Glioma/pathology , Humans , Infant , Magnetic Resonance Imaging , Male , Neoplasms, Germ Cell and Embryonal/diagnostic imaging , Neoplasms, Germ Cell and Embryonal/genetics , Neoplasms, Germ Cell and Embryonal/pathology , Neuroectodermal Tumors, Primitive/classification , Neuroectodermal Tumors, Primitive/pathology , Pineal Gland/diagnostic imaging , Pineal Gland/pathology , Pinealoma/pathology , Retrospective Studies , Rhabdoid Tumor/diagnostic imaging , Rhabdoid Tumor/genetics , Rhabdoid Tumor/pathology , Supratentorial Neoplasms/pathology , Teratoma/diagnostic imaging , Teratoma/genetics , Teratoma/pathology , Young Adult
2.
Oncogene ; 34(36): 4746-57, 2015 Sep 03.
Article in English | MEDLINE | ID: mdl-25531316

ABSTRACT

The identification of key tumorigenic events in Sonic Hedgehog (SHH) subgroup medulloblastomas (MBSHH) will be essential for the development of individualized therapies and improved outcomes. However, beyond confirmation of characteristic SHH pathway mutations, recent genome-wide sequencing studies have not revealed commonly mutated genes with widespread relevance as potential therapeutic targets. We therefore examined any role for epigenetic DNA methylation events in MBSHH using a cross-species approach to candidate identification, prioritization and validation. MBSHH-associated DNA methylation events were first identified in 216 subgrouped human medulloblastomas (50 MBSHH, 28 Wnt/Wingless, 44 Group 3 and 94 Group 4) and their conservation then assessed in tumors arising from four independent murine models of Shh medulloblastoma, alongside any role in tumorigenesis using functional assessments in mouse and human models. This strategy identified widespread regional CpG hypo-methylation of VAV1, leading to its elevated expression, as a conserved aberrant epigenetic event, which characterizes the majority of MBSHH tumors in both species, and is associated with a poor outcome in MBSHH patients. Moreover, direct modulation of VAV1 in mouse and human models revealed a critical role in tumor maintenance, and its abrogation markedly reduced medulloblastoma growth. Further, Vav1 activity regulated granule neuron precursor germinal zone exit and migration initiation in an ex vivo model of early postnatal cerebellar development. These findings establish VAV1 as a critical epigenetically regulated oncogene with a key role in MBSHH maintenance, and highlight its potential as a validated therapeutic target and prognostic biomarker for the improved therapy of medulloblastoma.


Subject(s)
DNA Methylation/genetics , Epigenesis, Genetic , Medulloblastoma/genetics , Proto-Oncogene Proteins c-vav/genetics , Animals , Cell Proliferation , Cell Transformation, Neoplastic/genetics , CpG Islands/genetics , Humans , Medulloblastoma/pathology , Mice , Neurons/metabolism , Neurons/pathology , Proto-Oncogene Proteins c-vav/biosynthesis , Signal Transduction , Xenograft Model Antitumor Assays
3.
J Sports Med Phys Fitness ; 54(2): 197-202, 2014 Apr.
Article in English | MEDLINE | ID: mdl-24509991

ABSTRACT

AIM: Obesity has been associated with gait alterations, but most studies have utilized BMI for classification. This study examined gait alterations based on body fat and BMI. METHOD: Participants (N.=22) had BMI and body fat percentage determined and underwent gait analysis. Body fat percentage was determined using dual energy x-ray absorptiometry (DEXA). Gait variables were examined in 3 groups: step width, preferred walking speed, and stride length; angular displacement at the knee and angular displacement at the ankle; and peak knee flexion velocity and peak knee extension velocity. A multivariate approach with follow-up univariate tests was used. RESULTS: Based on BMI, there was a significant effect for step width, preferred walking speed, and stride length (F[3, 16]=3.47, P=0.04). Univariate tests were significant for preferred walking speed and stride length (both P<0.03). Overweight by BMI participants had a lower preferred walking speed (1.31±0.16 m/s vs. 1.53±0.18 m/s) and shorter stride length (1.23±0.11 m vs. 1.38±0.11 m). Based on body fat percentage, there was a significant effect for peak knee flexion velocity and peak knee extension velocity (F[2, 19]=4.08, P=0.03). Overweight by body fat participants had lower peak knee flexion velocity (295.99±21.32 o/s vs. 320.25±27.67 o/s; P=0.04). CONCLUSION: Gait alterations were found for both methods of classifying obesity. However, the alterations were different for each method. The method of determining obesity appears to affect where gait alterations are found.


Subject(s)
Gait/physiology , Obesity/classification , Obesity/physiopathology , Absorptiometry, Photon , Adult , Biomechanical Phenomena , Body Mass Index , Female , Humans , Middle Aged
4.
Oncogene ; 29(26): 3865-72, 2010 Jul 01.
Article in English | MEDLINE | ID: mdl-20440271

ABSTRACT

Dysregulated signal transduction through the notch pathway has been noted in human and mouse medulloblastoma studies. Gamma secretase inhibitors (GSIs) impair notch signaling by preventing the cleavage of transmembrane notch proteins into their active intracellular domain fragments. Previous studies have shown that GSI treatment caused apoptosis and impaired medulloblastoma cell engraftment in xenograft systems. In this study, we used in vivo genetic and pharmacologic approaches to quantify the contribution of notch signaling to sonic hedgehog (shh)-activated mouse medulloblastoma models. In contrast to prior in vitro studies, pharmacologic inhibition of notch pathways did not reduce the efficiency of medulloblastoma xenotransplantation nor did systemic therapy impact tumor size, proliferation, or apoptosis in genetically engineered mouse medulloblastoma models. The incidence and pathology of medulloblastomas driven by the SmoA1 transgene was unchanged by the bi-allelic absence of Notch1, Notch2, or Hes5 genes. These data show that notch signaling is not essential for the initiation, engraftment, or maintenance of sonic hedgehog pathway-driven medulloblastomas.


Subject(s)
Brain Neoplasms/metabolism , Hedgehog Proteins/physiology , Medulloblastoma/metabolism , Receptors, Notch/metabolism , Signal Transduction , Animals , Brain Neoplasms/pathology , Humans , Medulloblastoma/pathology , Mice , Receptors, Notch/genetics
5.
Phys Rev Lett ; 94(9): 096101, 2005 Mar 11.
Article in English | MEDLINE | ID: mdl-15783978

ABSTRACT

The observation of III-V phosphide (001)-(2 x 2) surfaces makes it possible to solve a long standing mystery of step structures. First-principles calculations show that a bulklike type-B step on a hydrogenated 2 x 2 surface is more stable than a rebonded one by 1.1 eV/unit step. In contrast, this energy difference for a H-free beta(2 x 4) surface is only 0.5 eV/unit step. The large difference explains why the CuPt ordering of GaInP is stronger in metal-organic chemical vapor deposition than in molecular beam epitaxy. However, a minute amount of Sb will preferentially attach to the 2 x 2 surface steps and induce additional step structures that cause ordering disruption.

6.
Genes Immun ; 3 Suppl 1: S5-S12, 2002 Oct.
Article in English | MEDLINE | ID: mdl-12215896

ABSTRACT

Systemic lupus erythematosus (SLE) appears to be the consequence of complex genetics and of only partly understood environmental contributions. Previous work by ourselves and by others has established genetic effects on 1q, 2q, 4p, 6p, and 16p using SLE as the phenotype. However, individual SLE affecteds are extraordinarily different from one another by clinical and laboratory measures. This variation may have a genetic basis; if so, it is advantageous to incorporate measures of between-family clinical variability as covariates in a genetic linkage analysis of affected relative pairs (ARPs) to allow for locus heterogeneity. This approach was applied to genome scan marker data from 160 pedigrees multiplex for SLE and containing 202 ARPs. Because the number of potential covariates was large, we used both ad hoc methods and formal principal components analysis to construct four composite covariates using the SLE classification criteria plus age of onset, ethnicity, and sex. Linkage analysis without covariates has detected evidence for linkage at 1q22-24, 2q37, 4p16, 12p12-11, and 17p13. Linkage analysis with these covariates uncovered linkage at 13p11, 17q11-25, and 20q12 and greatly improved evidence for linkage at 1q22-24, 2q37, 12p12-11, and 17p13. Follow-up analysis identified the original variables contributing to locus heterogeneity in each of these locations. In conclusion, allowing for locus heterogeneity through the incorporation of covariates in linkage analysis is a useful way to dissect the genetic contributions to SLE and uncover new genetic effects.


Subject(s)
Genetic Heterogeneity , Genetic Linkage , Lupus Erythematosus, Systemic/genetics , Analysis of Variance , Female , Humans , Lod Score , Male , Models, Genetic
7.
Phys Rev Lett ; 89(7): 076103, 2002 Aug 12.
Article in English | MEDLINE | ID: mdl-12190535

ABSTRACT

Periodic arrays of large hexagonal tiles (up to 170 A in size) are observed on As/Ge(111) surfaces. First-principles total energy calculations combined with scanning tunneling microscopy reveal a (5-7-5)-ringed structure for the trenches that separate the tiles. We find that trenches form via an exothermic process. The calculated equilibrium trench spacing of approximately 104 A agrees with experiment. Comparison between first-principles calculations and continuum elasticity theory suggests that the observed mesoscopic reconstruction is driven entirely by long-range surface strain relaxation.

8.
Cancer ; 92(6): 1606-12, 2001 Sep 15.
Article in English | MEDLINE | ID: mdl-11745239

ABSTRACT

BACKGROUND: Wilms tumor is one of the few pediatric cancers with well-defined familial and genetic components. The authors assessed the risk of early-onset cancers in first- and second-degree relatives of patients enrolled by the National Wilms Tumor Study Group. METHODS: Using a stratified sampling scheme that targeted 530 families of patients who were believed a priori to have a genetic contribution to their disease, the authors conducted interviews regarding cancer occurrence in 4258 family members from 296 families of patients with Wilms tumor. Reports of malignant neoplasms that occurred before 55 years of age were confirmed by review of medical records wherever possible. A period of risk was defined for each family member based on calendar time and his or her relationship to the proband. RESULTS: Ninety-nine cancers were observed, whereas 126.8 were expected by applying standard cancer rates for age and calendar period to the 120,885 person-years at risk. The standardized incidence ratio (SIR) was O-E = 0.78 with 95% confidence interval (CI) of (0.64, 0.95). In subgroup analyses, the highest relative risks were observed for parents of the index case (O/E = 21/13.0 = 1.6, 95% CI = 1.0, 2.5) and for leukemia (O/E = 9/4.9 = 1.9, 95% CI= 0.85,3.5). CONCLUSIONS: The results of this study may provide reassurance to families of children who have had Wilms tumor. Potential sources of bias included the low (56%) rate of participation of targeted families. In general, the biases might have led to the underreporting of some cancers, especially in more distant relatives. The possibility of a slight excess of cancer in parents of Wilms tumor patients could not be excluded.


Subject(s)
Kidney Neoplasms/genetics , Wilms Tumor/genetics , Family , Female , Humans , Kidney Neoplasms/epidemiology , Male , Medical Records , Middle Aged , Pedigree , Wilms Tumor/epidemiology
9.
Proc Natl Acad Sci U S A ; 98(23): 13201-6, 2001 Nov 06.
Article in English | MEDLINE | ID: mdl-11687606

ABSTRACT

Expanded polyglutamine tracts are responsible for at least eight fatal neurodegenerative diseases. In mouse models, proteins with expanded polyglutamine cause transcriptional dysregulation before onset of symptoms, suggesting that this dysregulation may be an early event in polyglutamine pathogenesis. Transcriptional dysregulation and cellular toxicity may be due to interaction between expanded polyglutamine and the histone acetyltransferase CREB-binding protein. To determine whether polyglutamine-mediated transcriptional dysregulation occurs in yeast, we expressed polyglutamine tracts in Saccharomyces cerevisiae. Gene expression profiles were determined for strains expressing either a cytoplasmic or nuclear protein with 23 or 75 glutamines, and these profiles were compared to existing profiles of mutant yeast strains. Transcriptional induction of genes encoding chaperones and heat-shock factors was caused by expression of expanded polyglutamine in either the nucleus or cytoplasm. Transcriptional repression was most prominent in yeast expressing nuclear expanded polyglutamine and was similar to profiles of yeast strains deleted for components of the histone acetyltransferase complex Spt/Ada/Gcn5 acetyltransferase (SAGA). The promoter from one affected gene (PHO84) was repressed by expanded polyglutamine in a reporter gene assay, and this effect was mitigated by the histone deacetylase inhibitor, Trichostatin A. Consistent with an effect on SAGA, nuclear expanded polyglutamine enhanced the toxicity of a deletion in the SAGA component SPT3. Thus, an early component of polyglutamine toxicity, transcriptional dysregulation, is conserved in yeast and is pharmacologically antagonized by a histone deacetylase inhibitor. These results suggest a therapeutic approach for treatment of polyglutamine diseases and provide the potential for yeast-based screens for agents that reverse polyglutamine toxicity.


Subject(s)
Peptides/genetics , Saccharomyces cerevisiae/genetics , Transcription, Genetic , Amino Acid Sequence , Cell Nucleus/metabolism , Fungal Proteins/genetics , Gene Deletion , Gene Expression Profiling , Peptides/metabolism , Promoter Regions, Genetic , Proton-Phosphate Symporters/genetics , Saccharomyces cerevisiae Proteins/genetics , Transcription Factors/genetics
10.
Phys Rev Lett ; 87(16): 166104, 2001 Oct 15.
Article in English | MEDLINE | ID: mdl-11690219

ABSTRACT

We examine the double-layer B-type steps on As-terminated vicinal Ge(001) surfaces. The currently accepted structure is a chemically inert bulklike structure without any gap state, and with all the chemical bonds of the Ge and As atoms being satisfied. However, we show that the need for optimizing the p(3) pyramidal angles of the threefold coordinated As atoms drives unusual atomic rearrangement. This leads to a more stable reconstruction involving odd-membered (5-7-5) rings at the step edge. Comparison between theoretical and experimental scanning tunneling microscopy images yields excellent agreement.

11.
J Comp Physiol B ; 171(7): 527-42, 2001 Oct.
Article in English | MEDLINE | ID: mdl-11686611

ABSTRACT

Thermogenic capabilities of red-winged blackbirds improve markedly during their 10-12-day nestling period, especially between day 5 and day 8. The time course of improvements may be determined by the maturation of skeletal muscles involved in shivering thermogenesis, particularly the pectoralis muscles. To test this hypothesis, morphological and biochemical changes in pectoral and leg muscles were measured in young and adult blackbirds. Both muscles grew disproportionately relative to body mass. The pectoralis consisted entirely of fast-twitch fibers, predominantly fast oxidative glycolytic. In contrast, the gastrocnemius muscle consisted of a mixture of slow and fast fibers (predominantly fast glycolytic). Although fiber composition was constant, both cross-sectional area and density of fibers increased with age in both muscles. Catabolic capacities of the pectoralis increased significantly (approximately 7-8-fold) throughout the nestling period, most abruptly after day 3 (citrate synthase, CS) or day 4 (3-hydroxacyl-CoA-dehydrogenase, HOAD). Myofibrillar ATPase activities in the pectoralis were initially low, but increased after day 5. Further increases in CS and myofibrillar ATPase activities occurred in the pectoralis after fledging. CS and HOAD activities in the leg were much lower, but myofibrillar ATPase activities were remarkably similar in the two muscles, differing only in adults. These results are consistent with the hypothesis that the development of endothermy is dependent on the morphological and biochemical maturation of skeletal muscles important in thermogenesis.


Subject(s)
Body Temperature Regulation/physiology , Energy Metabolism/physiology , Muscle, Skeletal/cytology , Muscle, Skeletal/metabolism , Songbirds/physiology , 3-Hydroxyacyl CoA Dehydrogenases/metabolism , Adenosine Triphosphatases/metabolism , Animals , Citrate (si)-Synthase/metabolism , Female , Male , Muscle Fibers, Skeletal/chemistry , Muscle Fibers, Skeletal/cytology , Muscle Fibers, Skeletal/enzymology , Muscle Proteins/analysis , Muscle, Skeletal/growth & development
12.
Am J Hum Genet ; 69(4): 895-9, 2001 Oct.
Article in English | MEDLINE | ID: mdl-11500807

ABSTRACT

Although mutations in the amyloid-beta precursor protein (APP) gene are known to confer high risk of Alzheimer disease (AD) to a small percentage of families in which it has early onset, convincing evidence of a major role for the APP locus in late-onset AD has not been forthcoming. In this report, we have used a covariate-based affected-sib-pair linkage method to analyze the chromosome 21 clinical and genetic data obtained on affected sibships by the National Institute of Mental Health Alzheimer Disease Genetics Initiative. The baseline model (without covariates) gave a LOD score of 0.02, which increases to 1.43 when covariates representing the additive effects of E2 and E4 are added. Larger increases in LOD scores were found when age at last examination/death (LOD score 5.54; P=.000002) or age at onset plus disease duration (LOD score 5.63; P=.000006) were included in the linkage model. We conclude that the APP locus may predispose to AD in the very elderly.


Subject(s)
Alzheimer Disease/epidemiology , Alzheimer Disease/genetics , Amyloid beta-Protein Precursor/genetics , Chromosomes, Human, Pair 21/genetics , Genetic Predisposition to Disease/genetics , Age of Onset , Aged , Aged, 80 and over , Alleles , Apolipoproteins E/genetics , Chromosome Mapping , Female , Gene Frequency/genetics , Humans , Lod Score , Male , Middle Aged , Models, Genetic , Nuclear Family
13.
Genome Res ; 11(7): 1227-36, 2001 Jul.
Article in English | MEDLINE | ID: mdl-11435405

ABSTRACT

We have developed a statistical regression modeling approach to discover genes that are differentially expressed between two predefined sample groups in DNA microarray experiments. Our model is based on well-defined assumptions, uses rigorous and well-characterized statistical measures, and accounts for the heterogeneity and genomic complexity of the data. In contrast to cluster analysis, which attempts to define groups of genes and/or samples that share common overall expression profiles, our modeling approach uses known sample group membership to focus on expression profiles of individual genes in a sensitive and robust manner. Further, this approach can be used to test statistical hypotheses about gene expression. To demonstrate this methodology, we compared the expression profiles of 11 acute myeloid leukemia (AML) and 27 acute lymphoblastic leukemia (ALL) samples from a previous study (Golub et al. 1999) and found 141 genes differentially expressed between AML and ALL with a 1% significance at the genomic level. Using this modeling approach to compare different sample groups within the AML samples, we identified a group of genes whose expression profiles correlated with that of thrombopoietin and found that genes whose expression associated with AML treatment outcome lie in recurrent chromosomal locations. Our results are compared with those obtained using t-tests or Wilcoxon rank sum statistics.


Subject(s)
Gene Expression Profiling/methods , Gene Expression Profiling/statistics & numerical data , Models, Genetic , Models, Statistical , Acute Disease , Gene Expression Regulation, Neoplastic/genetics , Humans , Leukemia, Myeloid/genetics , Oligonucleotide Array Sequence Analysis/methods , Oligonucleotide Array Sequence Analysis/statistics & numerical data , Precursor Cell Lymphoblastic Leukemia-Lymphoma/genetics , Regression Analysis
14.
J Pers Soc Psychol ; 80(6): 845-60, 2001 Jun.
Article in English | MEDLINE | ID: mdl-11414369

ABSTRACT

The genetic basis of individual differences in attitudes was examined in a survey of 195 pairs of monozygotic twins and 141 pairs of same-sex dizygotic twins. A principal components analysis of the 30 attitude items in the survey identified 9 attitude factors, of which 6 yielded significant heritability coefficients. Nonshared environmental factors accounted for the most variance in the attitude factors. Possible mediators of attitude heritability were also assessed, including personality traits, physical characteristics, and academic achievement. Analyses showed that several of these possible mediators correlated at a genetic level with the heritable attitude factors, suggesting that the heritability of the mediator variables might account for part of the heritable components of some attitudes. There was also some evidence that highly heritable attitudes were psychologically "stronger" than less heritable attitudes.


Subject(s)
Attitude , Twins, Dizygotic/psychology , Twins, Monozygotic/psychology , Achievement , Adult , Female , Humans , Individuality , Male , Personality/genetics , Social Environment , Social Values , Twins, Dizygotic/genetics , Twins, Monozygotic/genetics
15.
Dev Biol ; 234(1): 174-87, 2001 Jun 01.
Article in English | MEDLINE | ID: mdl-11356028

ABSTRACT

NeuroD2 is sufficient to induce cell cycle arrest and neurogenic differentiation in nonneuronal cells. To determine whether this bHLH transcription factor was necessary for normal brain development, we used homologous recombination to replace the neuroD2 coding region with a beta-galactosidase reporter gene. The neuroD2 gene expressed the reporter in a subset of neurons in the central nervous system, including in neurons of the neocortex and hippocampus and cerebellum. NeuroD2(-/-) mice showed normal development until about day P14, when they began exhibiting ataxia and failure to thrive. Brain areas that expressed neuroD2 were smaller than normal and showed higher rates of apoptosis. Cerebella of neuroD2-null mice expressed reduced levels of genes encoding proteins that support cerebellar granule cell survival, including brain-derived neurotrophic factor (BDNF). Decreased levels of BDNF and higher rates of apoptosis in cerebellar granule cells of neuroD2(-/-) mice indicate that neuroD2 is necessary for the survival of specific populations of central nervous system neurons in addition to its known effects on cell cycle regulation and neuronal differentiation.


Subject(s)
Central Nervous System/cytology , Neurons/cytology , Neuropeptides/genetics , Transcription Factors/genetics , Animals , Apoptosis , Ataxia , Basic Helix-Loop-Helix Transcription Factors , Brain-Derived Neurotrophic Factor/biosynthesis , Cell Cycle , Cell Differentiation , Cell Survival , Cerebellar Cortex/cytology , Epilepsy , Failure to Thrive , Gene Deletion , Mice , Mice, Mutant Strains , Motor Activity , Tissue Distribution
16.
Am J Hum Genet ; 68(5): 1197-206, 2001 May.
Article in English | MEDLINE | ID: mdl-11309685

ABSTRACT

As with many complex genetic diseases, genome scans for prostate cancer have given conflicting results, often failing to provide replication of previous findings. One factor contributing to the lack of consistency across studies is locus heterogeneity, which can weaken or even eliminate evidence for linkage that is present only in a subset of families. Currently, most analyses either fail to account for locus heterogeneity or attempt to account for it only by partitioning data sets into smaller and smaller portions. In the present study, we model locus heterogeneity among affected sib pairs with prostate cancer by including covariates in the linkage analysis that serve as surrogate measures of between-family linkage differences. The model is a modification of the Olson conditional logistic model for affected relative pairs. By including Gleason score, age at onset, male-to-male transmission, and/or number of affected first-degree family members as covariates, we detected linkage near three locations that were previously identified by linkage (1q24-25 [HPC1; LOD score 3.25, P=.00012], 1q42.2-43 [PCAP; LOD score 2.84, P=.0030], and 4q [LOD score 2.80, P=.00038]), near the androgen-receptor locus on Xq12-13 (AR; LOD score 3.06, P=.00053), and at five new locations (LOD score > 2.5). Without covariates, only a few weak-to-moderate linkage signals were found, none of which replicate findings of previous genome scans. We conclude that covariate-based linkage analysis greatly improves the likelihood that linked regions will be found by incorporation of information about heterogeneity within the sample.


Subject(s)
Chromosome Mapping/methods , Chromosome Mapping/statistics & numerical data , Chromosomes, Human, Pair 1/genetics , Chromosomes, Human, Pair 4/genetics , Genetic Heterogeneity , Models, Genetic , Prostatic Neoplasms/genetics , Age of Onset , Genetic Markers , Genetic Predisposition to Disease/genetics , Humans , Lod Score , Logistic Models , Male , Matched-Pair Analysis , Nuclear Family , Polymorphism, Genetic/genetics , Prostatic Neoplasms/epidemiology , Receptors, Androgen/genetics , Reproducibility of Results , X Chromosome/genetics
17.
Plant Cell ; 13(4): 769-79, 2001 Apr.
Article in English | MEDLINE | ID: mdl-11283335

ABSTRACT

Using phragmoplastin as a bait, we isolated an Arabidopsis cDNA encoding a novel UDP-glucose transferase (UGT1). This interaction was confirmed by an in vitro protein--protein interaction assay using purified UGT1 and radiolabeled phragmoplastin. Protein gel blot results revealed that UGT1 is associated with the membrane fraction and copurified with the product-entrapped callose synthase complex. These data suggest that UGT1 may act as a subunit of callose synthase that uses UDP-glucose to synthesize callose, a 1,3-beta-glucan. UGT1 also interacted with Rop1, a Rho-like protein, and this interaction occurred only in its GTP-bound configuration, suggesting that the plant callose synthase may be regulated by Rop1 through the interaction with UGT1. The green fluorescent protein--UGT1 fusion protein was located on the forming cell plate during cytokinesis. We propose that UGT1 may transfer UDP-glucose from sucrose synthase to the callose synthase and thus help form a substrate channel for the synthesis of callose at the forming cell plate.


Subject(s)
Arabidopsis/genetics , Glucosyltransferases/metabolism , Plant Proteins/metabolism , Schizosaccharomyces pombe Proteins , Arabidopsis/metabolism , Cell Division , Cell Fractionation , Cell Wall/metabolism , DNA, Complementary/isolation & purification , Glucosyltransferases/genetics , Green Fluorescent Proteins , Luminescent Proteins/genetics , Membrane Proteins/isolation & purification , Membrane Proteins/metabolism , Protein Binding , Recombinant Fusion Proteins/isolation & purification , Recombinant Fusion Proteins/metabolism , Sequence Alignment , Sequence Analysis, Protein , Two-Hybrid System Techniques
18.
Nat Med ; 7(4): 419-23, 2001 Apr.
Article in English | MEDLINE | ID: mdl-11283667

ABSTRACT

Polyglutamine diseases comprise a class of familial neurodegenerative disorders caused by expression of proteins containing expanded polyglutamine tracts. Great progress has been made in elucidating the molecular mechanisms contributing to polyglutamine pathology, and in identifying potential drug targets. Although much remains to be learned, these advances provide an opportunity for rational approaches to target-based drug discovery.


Subject(s)
Neurodegenerative Diseases/drug therapy , Neurodegenerative Diseases/genetics , Peptides/genetics , Animals , Apoptosis , Caspases/metabolism , Drug Design , Humans , Huntington Disease/drug therapy , Huntington Disease/genetics , Molecular Chaperones/metabolism , Nerve Degeneration/etiology , Protein Folding , Transcription, Genetic , Trinucleotide Repeats
19.
Am J Kidney Dis ; 37(3): 638-47, 2001 Mar.
Article in English | MEDLINE | ID: mdl-11228193

ABSTRACT

Diabetic nephropathy (DN) clusters in families and specific ethnic groups, suggesting a genetic basis of disease transmission. Identification of DN susceptibility loci should reveal new therapeutic targets but requires accurate phenotyping. A powerful family-based strategy, which is novel to the pursuit of nephropathy genes in type 2 diabetes, is being used to collect a sample for candidate gene and genome scan analyses. Sib pairs that include DN index cases plus (1) sibs concordant for type 2 diabetes and DN (affected sib pairs [ASPs]) and (2) sibs concordant for type 2 diabetes but discordant for DN (discordant sib pairs [DSPs]) are targeted specifically for recruitment. Type 2 diabetes and DN phenotype criteria for index cases include diabetes onset after 38 years of age, duration 10 years or longer, no initial insulin treatment, diabetic retinopathy, end-stage renal disease (ESRD), and history of nephrotic proteinuria. ESRD patients were screened by questionnaire and medical record review (n = 2114). Of 666 patients with ESRD secondary to DN, 227 had a family history of ESRD, 150 had a living diabetic sib, and 124 families were enrolled. Sixty-five families, with 86 diabetic relative pairs (69 sibs, 17 children), have been completely phenotyped. If nephropathy in diabetic sibs is defined as albuminuria greater than 0.3 g/24 h, 31 ASPs and 26 DSPs (diabetic sib with albuminuria <0.3 g/24 h) were identified. Applying more stringent criteria, only 12 ASPs (sib with diabetes >10 years, diabetic retinopathy, and nephrotic proteinuria) and 9 DSPs (sib with diabetes >10 years and normal urine albumin excretion) were identified. Extrapolating from the number of subjects recruited using stringent phenotyping criteria, nearly 10,000 ESRD patients are required for screening to achieve adequate statistical power for linkage analysis (80% power to detect locus-specific relative risk of 2.2 at a lod score of 3.0). Careful phenotyping requires a large recruitment effort but is necessary to reduce population heterogeneity, a strategy that increases the likelihood of identifying DN loci.


Subject(s)
Diabetes Mellitus, Type 2/genetics , Diabetic Nephropathies/genetics , Genetic Markers , Genetic Predisposition to Disease , Age of Onset , Diabetes Mellitus, Type 2/complications , Diabetic Nephropathies/complications , Disease Progression , Family , Female , Genes , Humans , Kidney Failure, Chronic/ethnology , Kidney Failure, Chronic/etiology , Kidney Failure, Chronic/genetics , Male , Surveys and Questionnaires
20.
Physiol Biochem Zool ; 74(2): 250-60, 2001.
Article in English | MEDLINE | ID: mdl-11247744

ABSTRACT

Newly hatched precocial chicks of arctic shorebirds are able to walk and regulate their body temperatures to a limited extent. Yet, they must also grow rapidly to achieve independence before the end of the short arctic growing season. A rapid growth rate may conflict with development of mature function, and because of the allometric scaling of thermal relationships, this trade-off might be resolved differently in large and small species. We assessed growth (mass) and functional maturity (catabolic enzyme activity) in leg and pectoral muscles of chicks aged 1-16 d and adults of two scolopacid shorebirds, the smaller dunlin (Calidris alpina: neonate mass 8 g, adult mass 50 g) and larger whimbrel (Numenius phaeopus; neonate mass 34 g, adult mass 380 g). Enzyme activity indicates maximum catabolic capacity, which is one aspect of the development of functional maturity of muscle. The growth rate-maturity hypothesis predicts that the development of catabolic capacity should be delayed in faster-growing muscle masses. Leg muscles of both species were a larger proportion of adult size at hatching and grew faster than pectoral muscles. Pectoral muscles grew more rapidly in the dunlin than in the whimbrel, whereas leg muscles grew more rapidly in the whimbrel. In both species and in both leg and pectoral muscles, enzyme activities generally increased with age, suggesting increasing functional maturity. Levels of citrate synthase activity were similar to those reported for other species, but l-3-hydroxyacyl-CoA-dehydrogenase and pyruvate kinase (PK) activities were comparatively high. Catabolic capacities of leg muscles were initially high compared to those of pectoral muscles, but with the exception of glycolytic (PK) capacities, these subsequently increased only modestly or even decreased as chicks grew. The earlier functional maturity of the more rapidly growing leg muscles, as well as the generally higher functional maturity in muscles of the more rapidly growing dunlin chicks, contradicts the growth rate-maturity function trade-off and suggests that birds have considerable latitude to modify this relationship. Whimbrel chicks, apparently, can rely on allometric scaling of power requirements for locomotion and the thermal inertia of their larger mass to reduce demands on their muscles, whereas dunlin chicks require muscles with higher metabolic capacity from an earlier age. Thus, larger and smaller species may adopt different strategies of growth and tissue maturation.


Subject(s)
Birds/metabolism , Body Constitution , Muscle, Skeletal/metabolism , Animals , Birds/growth & development , Body Temperature Regulation , Muscle, Skeletal/enzymology , Species Specificity
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